Sequence
atgc intronic sequence ATGC exonic sequencegtaagtttctcttaggttggattaggatttgaggaataaagttttcatttttatcgttctgttactgttgttgaggaataaagttttgatttgaggaataaagttttgatttttatagttctgttatttttgttgaggaatcagatttgcatagagagatcactgaatagagtaatgtttgtgtgtttgttttcagTATTGAGATTTATAAACATCCGAAAGAAGAGCGAATAGCGAGAACTTGGGGTACGACTGCACCGGGTTTGCCTTATGTAGAAGAGGCGATAACCAATGCT
Basic information
species | Arabidopsis thaliana |
transcript | AT4G14680.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G14680.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA10G38760.1 (Glycine max), 3'ss of exon 1
gtaagtttctcttaggttggattaggatttgaggaataaagttttcatttttatcgttctgttactgttgttgaggaataaagttttgatttgaggaataaagttttgatttttatagttctgttatttttgttgaggaatcagatttgcatagagagatcactgaatagagtaatgtttgtgtgtttgttttcagTATTGAGATTTATAAACATCCGAAAGAAGAGCGAATAGCGAGAACTTGGGGTACGACTGCACCGGGTTTGCCTTATGTAGAAGAGGCGATAACCAATGCT
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-------------------------------------------------------------------------------------------tgtacgagtgattcttgattt--attctatagtcatctttttttactgttttgttttgttcctttc--ttatggcttatacttttcttcttttggttattt-cagTATTGAGATTTATAAGCATCCTAAAGAAGAAAGAATAGCCCGAACTTGGGGAACCATTGCCCCTGGCCTACCTTATGTTGAACAAACTATAACCAATGCT
upper sequence: AT4G14680.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA20G28980.2 (Glycine max), 3'ss of exon 1
gtaagtttctcttaggttggattaggatttgaggaataaagttttcatttttatcgttctgttactgttgttgaggaataaagttttgatttgaggaataaagttttgatttttatagttctgttatttttgttgaggaatcagatttgcatagagagatcactgaatagagtaatgtttgtgtgtttgttttcagTATTGAGATTTATAAACATCCGAAAGAAGAGCGAATAGCGAGAACTTGGGGTACGACTGCACCGGGTTTGCCTTATGTAGAAGAGGCGATAACCAATGCT
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----------------------------------------------------------------------------------------gttgtatgaatgat-tcttgattt--attctatagtcattcctttttaactgttttcttctcttcct----ttcctatggcttatacttttcttttggttattt-cagTGTTGAGATTTATAAGCATCCTAAAGAAGAAAGAATAGCCCGAACTTGGGGAACCACTGCCCCTGGCCTACCCTATGTTGAACAAACTATAACCAATGCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cagatttgcatagagagatcactgaatagagtaatgtttgtgtgtttgttttcagTATTGAGATTTATAAACATCCGAAAGAAGAGCGAATAGCGAGAACTTGGGGTACGACTGCACCGGGTTTGCCTTATGTAGAAGAGGCGATAACCAATGCT
tttgttttc CT-rich tract
taatgttt TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtttctcttaggttggattaggatttgaggaataaagttttcatttttatcgttctgttactgttgttgaggaataaagttttgatttgaggaataaagttttgatttttatagttctgttatttttgttgaggaatcagatttgcatagagagatcactgaatagagtaatgtttgtgtgtttgttttcagTATTGAGATTTATAAACATCCGAAAGAAGAGCGAATAGCGAGAACTTGGGGTACGACTGCACCGGGTTTGCCTTATGTAGAAGAGGCGATAACCAATGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG